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Global diversity lines - a five-continent reference panel of sequenced Drosophila melanogaster strains.

Grenier JK, Arguello JR, Moreira MC, Gottipati S, Mohammed J, Hackett SR, Boughton R, Greenberg AJ, Clark AG - G3 (Bethesda) (2015)

Bottom Line: Another key feature of these strains is their widespread geographic origin, coming from Beijing, Ithaca, Netherlands, Tasmania, and Zimbabwe.We found 83 segregating inversions among the lines, and as expected these were especially abundant in the African sample.We anticipate that this will make a useful addition to the set of reference D. melanogaster strains, thanks to its geographic structuring and unusually high level of genetic diversity.

View Article: PubMed Central - PubMed

Affiliation: Department of Molecular Biology and Genetics, Cornell University, Ithaca, New York 14853.

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Population distance network for the five populations as measured by genome-wide FST . Nodes represent each of the five populations (B: Beijing; I: Ithaca; N: Netherlands; T: Tasmania; Z: Zimbabwe), with edges representing the estimated distances measured by FST between all pairs of populations. Increased edge width and transparency corresponds with increased migration/gene flow (and decreased FST /differentiation).
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fig4: Population distance network for the five populations as measured by genome-wide FST . Nodes represent each of the five populations (B: Beijing; I: Ithaca; N: Netherlands; T: Tasmania; Z: Zimbabwe), with edges representing the estimated distances measured by FST between all pairs of populations. Increased edge width and transparency corresponds with increased migration/gene flow (and decreased FST /differentiation).

Mentions: As a first look into the extent of population structure between samples, we calculated genome-wide FST using the SNP data (Figure 4). Consistent with an out of African migration (Begun and Aquadro 1993; Glinka et al. 2003; Haddrill et al. 2005; Ometto et al. 2005; Li and Stephan 2006; Thornton and Andolfatto 2006; Laurent et al. 2011), Zimbabwe is the most differentiated population, as can be seen by the narrow and more transparent edges in the network (Figure 4; average FST autosome: 0.08; X chromosome: 0.139), with the four non-African populations more closely related to each other. These levels of FST are in general agreement with reports from smaller datasets from the same populations (or proximal geographically). Interestingly, after Zimbabwe, Beijing is the next most differentiated. A previous survey also showed that other Asian strains were among the more differentiated within world-wide samples (Schlötterer et al. 2006). Although the average FST for Beijing is not as large as some of these other Asian estimates (average FST autosome: 0.05; X chromosome: 0.08), they provide additional evidence that Asia may harbor some of the more divergent D. melanogaster populations globally.


Global diversity lines - a five-continent reference panel of sequenced Drosophila melanogaster strains.

Grenier JK, Arguello JR, Moreira MC, Gottipati S, Mohammed J, Hackett SR, Boughton R, Greenberg AJ, Clark AG - G3 (Bethesda) (2015)

Population distance network for the five populations as measured by genome-wide FST . Nodes represent each of the five populations (B: Beijing; I: Ithaca; N: Netherlands; T: Tasmania; Z: Zimbabwe), with edges representing the estimated distances measured by FST between all pairs of populations. Increased edge width and transparency corresponds with increased migration/gene flow (and decreased FST /differentiation).
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4390575&req=5

fig4: Population distance network for the five populations as measured by genome-wide FST . Nodes represent each of the five populations (B: Beijing; I: Ithaca; N: Netherlands; T: Tasmania; Z: Zimbabwe), with edges representing the estimated distances measured by FST between all pairs of populations. Increased edge width and transparency corresponds with increased migration/gene flow (and decreased FST /differentiation).
Mentions: As a first look into the extent of population structure between samples, we calculated genome-wide FST using the SNP data (Figure 4). Consistent with an out of African migration (Begun and Aquadro 1993; Glinka et al. 2003; Haddrill et al. 2005; Ometto et al. 2005; Li and Stephan 2006; Thornton and Andolfatto 2006; Laurent et al. 2011), Zimbabwe is the most differentiated population, as can be seen by the narrow and more transparent edges in the network (Figure 4; average FST autosome: 0.08; X chromosome: 0.139), with the four non-African populations more closely related to each other. These levels of FST are in general agreement with reports from smaller datasets from the same populations (or proximal geographically). Interestingly, after Zimbabwe, Beijing is the next most differentiated. A previous survey also showed that other Asian strains were among the more differentiated within world-wide samples (Schlötterer et al. 2006). Although the average FST for Beijing is not as large as some of these other Asian estimates (average FST autosome: 0.05; X chromosome: 0.08), they provide additional evidence that Asia may harbor some of the more divergent D. melanogaster populations globally.

Bottom Line: Another key feature of these strains is their widespread geographic origin, coming from Beijing, Ithaca, Netherlands, Tasmania, and Zimbabwe.We found 83 segregating inversions among the lines, and as expected these were especially abundant in the African sample.We anticipate that this will make a useful addition to the set of reference D. melanogaster strains, thanks to its geographic structuring and unusually high level of genetic diversity.

View Article: PubMed Central - PubMed

Affiliation: Department of Molecular Biology and Genetics, Cornell University, Ithaca, New York 14853.

Show MeSH
Related in: MedlinePlus